CODEWITHSUNDEEP
imagej
Rotem Oved
Rotem Oved

Reputation: 1

Fiji: How can I use the information of the image in order to set the scale?

the images created in the microscope that we use in our lab don't have a scale bar. Can i use the information stored at the image itself/information from the microscope itself, in order to properly set the scale, and convert pixels into nm? I've downloaded the plugin called "microscope scale", but I don't understand how to use it. thank you!

Upvotes: 0

Views: 527

Answers (1)

hineroptera
hineroptera

Reputation: 769

Reading the description of the Microscope Scale plugin it sounds like you would need to manually edit the plugin's source code to set the scale for your data.

Instead I would suggest using the Bio-Formats Importer to open your data, as it has a good chance of reading calibration values directly from your images (if they were saved by the microscope).

If Bio-Formats doesn't work, then you can manually set the scale using the Spatial Calibration plugin provided with Fiji to convert pixels to nm.

Upvotes: 2

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